genome.fa.s8170.2.7.7.80.10.50.1000.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008170.1 Hibiscus syriacus cultivar Beakdansim tig00110761_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  686002

Tables:   1   2   3   

This is table  2  of  3  ( 318 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
203094--203152	30	2.0	30	87	9	86	28	3	1	66	1.18
203097--203159	29	2.2	29	83	11	76	31	3	1	63	1.19
203181--203214	15	2.3	15	89	0	50	64	0	2	32	1.08
204252--204412	60	2.7	60	79	7	168	32	21	1	44	1.63
204253--204363	58	1.9	59	84	1	152	34	18	2	45	1.63
211747--211780	2	16.5	2	93	6	59	50	2	0	47	1.16
215549--215590	21	2.0	21	90	9	68	23	19	28	28	1.98
222761--222819	29	2.0	29	100	0	118	23	13	13	49	1.78
238501--238541	21	2.0	21	90	0	64	34	19	14	31	1.92
242516--242978	230	2.0	232	99	0	912	40	17	14	27	1.88
243326--243371	21	2.1	22	92	4	76	36	26	13	23	1.91
250293--250408	24	4.7	24	74	12	99	21	12	16	50	1.77
250344--250386	14	3.1	14	96	0	77	32	9	13	44	1.76
250344--250386	7	6.1	7	91	0	68	32	9	13	44	1.76
251552--251668	60	2.0	60	82	3	146	39	3	23	34	1.71
251707--251824	60	2.0	60	83	3	148	39	3	22	33	1.71
251552--251864	156	2.0	156	100	0	626	38	5	18	37	1.75
255922--256012	31	2.9	30	85	9	121	50	9	5	34	1.59
259570--259635	28	2.4	28	87	9	93	13	9	28	48	1.73
264296--264495	41	4.9	41	67	12	124	28	17	22	33	1.96
264258--264495	82	2.9	82	86	5	311	27	18	22	32	1.97
264290--264568	82	3.4	82	82	5	242	28	16	21	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267705--268015	43	7.2	43	76	7	276	26	21	19	31	1.98
267705--268015	87	3.6	84	80	8	299	26	21	19	31	1.98
270151--270461	153	2.0	154	98	1	597	32	14	10	42	1.80
276996--277036	14	2.9	14	88	0	64	46	21	2	29	1.64
279681--280132	227	2.0	227	95	1	816	32	12	18	36	1.88
296113--296462	177	2.0	176	95	3	634	37	18	24	19	1.94
298788--298905	58	2.1	58	95	4	213	24	12	16	46	1.81
306570--306624	28	2.0	28	96	0	101	23	1	34	40	1.66
306911--307053	71	2.0	72	98	1	279	35	22	23	18	1.95
315285--315324	21	1.9	21	84	0	53	37	5	17	40	1.72
317427--317477	15	3.3	16	78	5	52	68	0	0	31	0.90
318220--318467	123	2.0	124	96	2	455	68	4	6	19	1.30
318371--318432	22	3.0	22	73	21	62	74	6	4	14	1.19
318390--318456	28	2.4	27	74	16	73	79	2	2	14	0.98
319772--319834	22	2.9	21	79	15	65	76	0	9	14	1.02
321093--321139	24	2.0	24	87	8	69	76	0	8	14	1.01
321942--321991	17	2.8	18	79	14	50	80	2	8	10	0.99
322894--322919	11	2.4	11	100	0	52	23	0	15	61	1.33
325913--326130	103	2.1	103	95	0	391	26	13	22	36	1.92
326147--326229	23	3.6	23	91	0	121	20	25	27	26	1.99
328522--328586	24	2.7	24	85	0	85	21	12	16	49	1.79
329497--329535	17	2.2	18	86	4	53	82	2	7	7	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329597--329648	3	18.7	3	86	11	67	71	0	0	28	0.87
330263--330299	2	18.5	2	100	0	74	51	0	0	48	1.00
330342--330383	2	21.0	2	100	0	84	50	0	0	50	1.00
330474--330535	25	2.4	25	82	12	74	75	1	8	14	1.10
332829--332884	29	1.9	29	82	13	71	37	5	1	55	1.33
336792--337177	82	4.7	81	83	1	470	38	17	9	34	1.82
336792--337183	164	2.4	162	84	2	518	38	17	9	34	1.82
337121--337243	61	2.0	61	88	0	183	41	17	9	31	1.82
340867--340907	5	8.2	5	88	0	64	41	34	24	0	1.55
344365--344426	25	2.5	25	100	0	124	16	9	17	56	1.66
345791--345825	17	2.1	17	88	0	52	37	11	8	42	1.72
345835--345877	22	2.0	22	86	9	61	37	20	16	25	1.93
345836--345883	22	2.2	22	81	7	53	41	20	12	25	1.87
350831--350883	27	1.9	28	92	3	90	62	5	5	26	1.40
351603--351643	17	2.3	19	84	16	61	34	0	0	65	0.93
352524--352548	2	12.5	2	100	0	50	52	0	0	48	1.00
355602--355685	31	2.7	31	85	3	107	42	4	7	45	1.52
356151--356223	24	3.0	24	90	4	76	12	15	23	49	1.78
356161--356216	14	4.3	14	80	17	75	10	14	23	51	1.73
356162--356236	24	3.1	24	92	3	116	13	12	20	54	1.70
357286--357352	16	4.3	16	88	3	93	10	11	19	58	1.62
357412--357464	10	6.1	10	68	31	50	9	11	20	58	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357412--357460	16	3.1	16	93	0	89	8	12	22	57	1.61
357596--357665	29	2.5	28	90	6	108	55	0	5	38	1.24
361872--361945	35	2.1	36	89	5	114	52	12	6	28	1.64
367177--367235	31	1.9	31	96	0	109	42	8	6	42	1.61
376753--376790	3	12.7	3	100	0	76	65	0	0	34	0.93
380830--380856	12	2.2	12	100	0	54	40	0	7	51	1.30
399127--399196	32	2.2	33	84	2	88	41	0	24	34	1.55
400007--400050	18	2.4	18	84	3	52	9	11	4	75	1.19
401046--401098	27	1.9	27	85	11	72	45	1	1	50	1.23
416543--416567	2	12.5	2	100	0	50	48	0	0	52	1.00
416594--416626	5	6.6	5	100	0	66	42	0	0	57	0.98
417178--417238	28	2.2	28	91	5	97	36	6	6	50	1.54
417750--417787	20	1.9	20	88	0	58	39	0	0	60	0.97
417813--417858	24	1.9	24	86	0	65	41	13	4	41	1.63
426431--426475	21	2.0	23	91	8	76	51	8	20	20	1.73
428394--428438	21	2.1	21	84	8	56	33	28	22	15	1.95
429861--429944	23	3.7	23	91	0	141	16	27	27	28	1.97
432125--432461	169	2.0	171	97	2	635	34	10	20	34	1.87
436518--436542	3	8.3	3	100	0	50	0	68	0	32	0.90
436544--436624	40	2.0	40	92	4	137	22	40	0	37	1.54
437289--437317	3	9.7	3	100	0	58	65	0	34	0	0.93
443942--443985	17	2.6	17	82	10	56	25	11	0	63	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444456--444507	20	2.5	21	81	3	61	40	19	23	17	1.91
444538--444590	20	2.7	20	93	0	88	24	28	20	26	1.99
445149--445187	19	2.1	19	90	0	60	56	23	15	5	1.59
445183--445314	19	7.1	19	80	11	130	12	24	20	42	1.87
445378--445432	25	2.2	24	78	15	58	20	7	20	52	1.69
447798--447837	19	2.1	19	85	0	53	47	22	17	12	1.81
447806--447858	20	2.7	20	88	2	72	37	24	18	18	1.94
448114--448157	22	2.0	22	90	0	70	18	13	45	22	1.84
448352--448485	20	6.7	20	85	5	162	24	18	26	29	1.98
448475--448550	21	3.7	21	80	3	100	15	25	18	40	1.90
448373--448548	41	4.3	41	82	5	137	21	21	23	34	1.97
448475--448567	20	4.6	20	77	4	87	17	23	18	40	1.90
448475--448567	41	2.3	41	98	0	177	17	23	18	40	1.90
449021--449112	48	1.9	48	100	0	184	41	10	8	39	1.71
450420--450487	23	2.8	24	72	14	68	45	0	0	54	0.99
450739--450783	8	5.5	8	86	2	54	82	0	13	4	0.82
450740--450778	4	9.8	4	88	0	51	82	0	15	2	0.79
450740--450793	28	2.0	28	85	3	74	79	1	12	5	0.98
452483--452552	34	2.1	34	94	0	122	34	22	10	32	1.88
452539--452599	29	2.1	29	87	0	86	31	21	11	36	1.89
458793--458865	23	3.2	23	63	7	58	41	10	16	31	1.83
465494--465569	9	8.4	9	86	0	107	57	0	15	26	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466105--466144	19	2.1	19	86	9	55	57	7	0	35	1.27
468281--468351	35	2.0	35	100	0	142	38	19	14	28	1.91
468894--468968	27	2.7	28	89	4	107	36	13	4	46	1.62
468915--468975	27	2.2	27	91	5	95	37	16	3	42	1.64
470588--470618	16	1.9	16	93	0	53	29	29	0	41	1.56
473888--473963	35	2.2	35	90	0	116	40	22	1	35	1.62
474360--474607	130	1.9	130	92	0	415	35	15	12	35	1.86
474377--474638	130	2.0	129	82	4	312	38	13	12	34	1.84
474846--474908	25	2.6	25	95	5	112	46	3	3	47	1.34
474958--475020	28	2.3	27	78	8	63	46	1	3	49	1.27

Tables:   1   2   3